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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ), 'gf_id' => 'HOM05D001067', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001067' ), 'data_identifier' => 'HOM05D001067', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001067', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17750' => 'bna', 'A02p09380' => 'bna', 'A02p09390' => 'bna', 'A06p00020' => 'bna', 'A06p00830' => 'bna', 'A07p20460' => 'bna', 'A08p00300' => 'bna', 'A10p13260' => 'bna', 'Aa31csc81G130' => 'aar', 'Aa31LG10G400' => 'aar', 'Aa31LG3G11980' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4724' => 'aag', 'Actinidia02275' => 'ach', 'Actinidia10576' => 'ach', 'Actinidia12351' => 'ach', 'Actinidia17256' => 'ach', 'Actinidia17257' => 'ach', 'Actinidia17258' => 'ach', 'Actinidia25659' => 'ach', 'Actinidia25660' => 'ach', 'Actinidia30371' => 'ach', 'Ah.01g015550' => 'amhyb', 'Ah.02g112250' => 'amhyb', 'Ah.12g054870' => 'amhyb', 'Ah.12g054880' => 'amhyb', 'AL1G63900' => 'aly', 'AL1G63910' => 'aly', 'AL6G36660' => 'aly', 'AL7G26440' => 'aly', 'AL8G31650' => 'aly', 'Aqoxy1G02837' => 'aox', 'Aqoxy1G02839' => 'aox', 'Aqoxy1G03168' => 'aox', 'Aqoxy1G03169' => 'aox', 'Aqoxy1G03171' => 'aox', 'Aqoxy5G01390' => 'aox', 'Aqoxy7G00612' => 'aox', 'arahy.Tifrunner.gnm1.ann1.80T7UU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E39P6R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M50IFS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RCFM9P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T0RA0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1IAK7' => 'arhy', 'AT1G55790' => 'ath', 'AT1G55800' => 'ath', 'AT1G55803' => 'ath', 'AT2G11045' => 'ath', 'AT4G26485' => 'ath', 'AT5G25030' => 'ath', 'AT5G56060' => 'ath', 'AT5G56075' => 'ath', 'ATR0751G107' => 'atr', 'ATR0751G115' => 'atr', 'Atru.chr1.2312' => 'acertr', 'Atru.chr2.2123' => 'acertr', 'Atru.chr2.2124' => 'acertr', 'Atru.chr2.3662' => 'acertr', 'Atru.chr6.3437' => 'acertr', 'Atru.chr6.3438' => 'acertr', 'AUR62011800' => 'cqu', 'AUR62014744' => 'cqu', 'AUR62014745' => 'cqu', 'AUR62015694' => 'cqu', 'AUR62015696' => 'cqu', 'AUR62016923' => 'cqu', 'AUR62020508' => 'cqu', 'AUR62020509' => 'cqu', 'AUR62020510' => 'cqu', 'AUR62024647' => 'cqu', 'AUR62035642' => 'cqu', 'AUR62035643' => 'cqu', 'BcaB02g10798' => 'bca', 'BcaB05g22241' => 'bca', 'BcaB07g33189' => 'bca', 'BcaB08g35971' => 'bca', 'BcaC04g20161' => 'bca', 'BcaC08g43551' => 'bca', 'BcaC09g50715' => 'bca', 'BcaNung02410' => 'bca', 'BcaNung02413' => 'bca', 'BolC1t02176H' => 'bol', 'BolC2t07669H' => 'bol', 'BolC2t07670H' => 'bol', 'BolC3t21620H' => 'bol', 'BolC5t30830H' => 'bol', 'BolC6t36022H' => 'bol', 'BolC6t36821H' => 'bol', 'BolC6t37127H' => 'bol', 'BolC6t38921H' => 'bol', 'BolC9t57569H' => 'bol', 'BraA01t01730Z' => 'bra', 'BraA02t06000Z' => 'bra', 'BraA02t06001Z' => 'bra', 'BraA02t06002Z' => 'bra', 'BraA06t23218Z' => 'bra', 'BraA08t32087Z' => 'bra', 'BraA10t43423Z' => 'bra', 'BraSC277t45949Z' => 'bra', 'C01p22440' => 'bna', 'C02p15530' => 'bna', 'C02p15540' => 'bna', 'C03p93220' => 'bna', 'C05p21320' => 'bna', 'C06p09510' => 'bna', 'C06p16240' => 'bna', 'C06p38220' => 'bna', 'C09p47140' => 'bna', 'CAN.G623.47' => 'can', 'CANSAT35G1105' => 'cansat', 'CANSAT56G0600' => 'cansat', 'CANSAT64G1609' => 'cansat', 'CARHR045500' => 'chi', 'CARHR220840' => 'chi', 'CARHR269430' => 'chi', 'CARHR269440' => 'chi', 'CARHR269450' => 'chi', 'CARHR270000' => 'chi', 'Carub.0001s4435' => 'cru', 'Carub.0001s4436' => 'cru', 'Carub.0006s2286' => 'cru', 'Carub.0007s1440' => 'cru', 'Carub.0008s1639' => 'cru', 'Ca_00778_v3' => 'car', 'Ca_14847_v3' => 'car', 'Cc05_g01860' => 'ccan', 'Cc05_g01870' => 'ccan', 'Cc05_g01890' => 'ccan', 'Cc05_g15460' => 'ccan', 'Cfa000014' => 'cfa', 'Cfa016934' => 'cfa', 'Cfa016936' => 'cfa', 'Cfa016937' => 'cfa', 'Cfa021908' => 'cfa', 'Cfa021909' => 'cfa', 'Ciclev10010347m.g' => 'ccl', 'Ciclev10010877m.g' => 'ccl', 'Ciclev10015551m.g' => 'ccl', 'Ciclev10016486m.g' => 'ccl', 'Ciclev10016506m.g' => 'ccl', 'Ciclev10017938m.g' => 'ccl', 'CiPaw.11G207900' => 'cil', 'CiPaw.11G208000' => 'cil', 'CiPaw.11G208100' => 'cil', 'CiPaw.11G208200' => 'cil', 'ClCG01G021100' => 'cla', 'ClCG09G021640' => 'cla', 'COL.COLO4_07754' => 'col', 'COL.COLO4_07755' => 'col', 'Cpa.g.sc27.200' => 'cpa', 'Cpa.g.sc27.201' => 'cpa', 'Cpa.g.sc27.202' => 'cpa', 'Cpa.g.sc27.204' => 'cpa', 'CsaV3_6G048100' => 'csa', 'CsaV3_7G021410' => 'csa', 'CsaV3_7G021420' => 'csa', 'CsaV3_7G021430' => 'csa', 'CsaV3_7G021440' => 'csa', 'CSS0003785' => 'camsi', 'CSS0014247' => 'camsi', 'CSS0026096' => 'camsi', 'CSS0032283' => 'camsi', 'CSS0034070' => 'camsi', 'CSS0036894' => 'camsi', 'CSS0038909' => 'camsi', 'CSS0041838' => 'camsi', 'CSS0050246' => 'camsi', 'CSS0050286' => 'camsi', 'DCAR_013776' => 'dca', 'DCAR_013777' => 'dca', 'DCAR_017591' => 'dca', 'DCAR_017592' => 'dca', 'Dinv04385' => 'din', 'Dinv05330' => 'din', 'Dinv05331' => 'din', 'Dinv07136' => 'din', 'Dinv10369' => 'din', 'Dinv10370' => 'din', 'Dinv10371' => 'din', 'Dinv23688' => 'din', 'Duzib213G0395' => 'dzi', 'Duzib213G0622' => 'dzi', 'Duzib213G0658' => 'dzi', 'Duzib213G0748' => 'dzi', 'Duzib213G0919' => 'dzi', 'ECA236G0124' => 'eca', 'ECA236G0842' => 'eca', 'ECA236G2579' => 'eca', 'ECA236G2652' => 'eca', 'ECA240G0558' => 'eca', 'ECA248G1320' => 'eca', 'EL10Ac1g02346' => 'bvu', 'EL10Ac4g07908' => 'bvu', 'EL10Ac4g07909' => 'bvu', 'EL10Ac4g07910' => 'bvu', 'EL10Ac4g07918' => 'bvu', 'EL10Ac4g07919' => 'bvu', 'EL10Ac4g08087' => 'bvu', 'EL10Ac8g20631' => 'bvu', 'EL10As5g23535' => 'bvu', 'Eucgr.F01440' => 'egr', 'Eucgr.F01441' => 'egr', 'Eucgr.F01443' => 'egr', 'Eucgr.F02009' => 'egr', 'Eucgr.F02011' => 'egr', 'Eucgr.F02013' => 'egr', 'Eucgr.L02489' => 'egr', 'Eucgr.L03451' => 'egr', 'FAN05G3753' => 'fan', 'FAN11G0166' => 'fan', 'FAN11G1903' => 'fan', 'FAN14G1200' => 'fan', 'FAN16G0911' => 'fan', 'FAN21G0198' => 'fan', 'FAN21G2587' => 'fan', 'FAN21G3485' => 'fan', 'FAN21G4025' => 'fan', 'FAN25G1933' => 'fan', 'FAN25G2674' => 'fan', 'FAN25G3539' => 'fan', 'FvH4_3g00200' => 'fve', 'FvH4_3g14860' => 'fve', 'FvH4_3g14861' => 'fve', 'FvH4_3g14862' => 'fve', 'FvH4_3g14880' => 'fve', 'FvH4_3g14890' => 'fve', 'FvH4_3g14891' => 'fve', 'FvH4_3g14892' => 'fve', 'FvH4_3g14901' => 'fve', 'FvH4_3g14902' => 'fve', 'FvH4_6g40260' => 'fve', 'Glyma.09G016200' => 'gma', 'Glyma.15G121900' => 'gma', 'Glyma.18G073100' => 'gma', 'Glyma.19G034300' => 'gma', 'Gohir.A01G098800' => 'ghi', 'Gohir.A01G098900' => 'ghi', 'Gohir.A13G130184' => 'ghi', 'Gohir.A13G130200' => 'ghi', 'Gohir.D01G083300' => 'ghi', 'Gohir.D01G083400' => 'ghi', 'Gohir.D13G133450' => 'ghi', 'Gohir.D13G133500' => 'ghi', 'Gorai.002G108800' => 'gra', 'Gorai.002G108900' => 'gra', 'Gorai.002G109000' => 'gra', 'Gorai.002G109100' => 'gra', 'Gorai.013G149800' => 'gra', 'Gorai.013G149900' => 'gra', 'GSVIVG01003466001' => 'vvi', 'GSVIVG01012535001' => 'vvi', 'GSVIVG01014807001' => 'vvi', 'GSVIVG01014811001' => 'vvi', 'GSVIVG01014816001' => 'vvi', 'GSVIVG01014821001' => 'vvi', 'GSVIVG01014824001' => 'vvi', 'GSVIVG01014828001' => 'vvi', 'GSVIVG01014829001' => 'vvi', 'GSVIVG01014830001' => 'vvi', 'GSVIVG01014831001' => 'vvi', 'GSVIVG01014832001' => 'vvi', 'GSVIVG01014833001' => 'vvi', 'HanXRQChr04g0114561' => 'han', 'HanXRQChr09g0257431' => 'han', 'HanXRQChr09g0276491' => 'han', 'HanXRQChr14g0458431' => 'han', 'HanXRQChr14g0458441' => 'han', 'HanXRQChr14g0460481' => 'han', 'HanXRQChr17g0558211' => 'han', 'HanXRQChr17g0567171' => 'han', 'Haze_09886' => 'cav', 'Haze_09892' => 'cav', 'Hma1.2p1_0193F.1_g084020' => 'hma', 'Hma1.2p1_0193F.1_g084030' => 'hma', 'Hma1.2p1_0193F.1_g084040' => 'hma', 'Hma1.2p1_0193F.1_g084050' => 'hma', 'Hma1.2p1_0321F.1_g124020' => 'hma', 'Hma1.2p1_2203F.1_g317100' => 'hma', 'HPP92_007498' => 'vpl', 'Hund01846' => 'sun', 'Hund01847' => 'sun', 'Hund01848' => 'sun', 'Hund01849' => 'sun', 'Hund01850' => 'sun', 'Hund23002' => 'sun', 'Lalb_Chr14g0370921' => 'lal', 'Lalb_Chr15g0082421' => 'lal', 'Lalb_Chr15g0082441' => 'lal', 'Lalb_Chr20g0119631' => 'lal', 'Lalb_Chr22g0353241' => 'lal', 'Lj1A896G43' => 'lonja', 'Lj1C896G13' => 'lonja', 'Lj1C896T3' => 'lonja', 'Lj1P896T31' => 'lonja', 'Lj2g0017208' => 'lja', 'Lj6g0007916' => 'lja', 'Lj6g0012988' => 'lja', 'Lj6g0018198' => 'lja', 'Lj6g0019358' => 'lja', 'LjContig00272g0025906' => 'lja', 'Lsat_1_v5_gn_4_64200' => 'lsa', 'Lsat_1_v5_gn_7_115181' => 'lsa', 'Lsat_1_v5_gn_7_115281' => 'lsa', 'Lsat_1_v5_gn_7_116500' => 'lsa', 'Lsat_1_v5_gn_9_103020' => 'lsa', 'Lsat_1_v5_gn_9_103120' => 'lsa', 'Lsat_1_v5_gn_9_103160' => 'lsa', 'Lsat_1_v5_gn_9_106340' => 'lsa', 'Lsat_1_v5_gn_9_107920' => 'lsa', 'Manes.01G004650' => 'mes', 'Manes.01G004860' => 'mes', 'Mapoly0021s0127' => 'mpo', 'MBI01_g16640_MAGBIO' => 'mbi', 'MBI14_g02796_MAGBIO' => 'mbi', 'MBI14_g33275_MAGBIO' => 'mbi', 'MBI15_g19858_MAGBIO' => 'mbi', 'MBI15_g19863_MAGBIO' => 'mbi', 'MBI15_g27840_MAGBIO' => 'mbi', 'MCO01G221' => 'mco', 'MCO12G425' => 'mco', 'MD05G1233500' => 'mdo', 'MD05G1233600' => 'mdo', 'MD05G1233800' => 'mdo', 'MD09G1133300' => 'mdo', 'MD09G1133400' => 'mdo', 'MD09G1133600' => 'mdo', 'MD10G1209900' => 'mdo', 'MD10G1210000' => 'mdo', 'MD10G1210100' => 'mdo', 'MD10G1210300' => 'mdo', 'MD10G1210400' => 'mdo', 'MD10G1341000' => 'mdo', 'MD17G1120900' => 'mdo', 'Medtr2g027540' => 'mtr', 'Medtr3g061060' => 'mtr', 'Medtr3g061070' => 'mtr', 'Medtr5g093740' => 'mtr', 'Medtr6g082260' => 'mtr', 'Medtr6g082310' => 'mtr', 'Medtr6g082340' => 'mtr', 'MELO3C007996.2' => 'cme', 'MELO3C013207.2' => 'cme', 'MELO3C013209.2' => 'cme', 'MELO3C013211.2' => 'cme', 'Migut.M01601' => 'egut', 'Migut.M01603' => 'egut', 'Migut.M01607' => 'egut', 'Migut.M01608' => 'egut', 'Migut.M01609' => 'egut', 'Migut.M01610' => 'egut', 'Migut.M01611' => 'egut', 'Migut.M01612' => 'egut', 'Migut.M01613' => 'egut', 'Migut.M01614' => 'egut', 'Migut.N02085' => 'egut', 'MSTRG.15197' => 'ama', 'MSTRG.15812' => 'ama', 'MSTRG.15814' => 'ama', 'MSTRG.7022' => 'ama', 'MSTRG.7024' => 'ama', 'MSTRG.7025' => 'ama', 'MSTRG.7026' => 'ama', 'MSTRG.7027' => 'ama', 'Nitab4.5_0000152g0230' => 'nta', 'Nitab4.5_0000152g0240' => 'nta', 'Nitab4.5_0001112g0050' => 'nta', 'Nitab4.5_0014360g0010' => 'nta', 'Nn1g07588' => 'nnu', 'Nn1g07591' => 'nnu', 'Nn3g19328' => 'nnu', 'Nn3g19329' => 'nnu', 'Nn3g20051' => 'nnu', 'Oeu049428.1' => 'oeu', 'Oeu049429.1' => 'oeu', 'Oeu049430.1' => 'oeu', 'Oeu049431.1' => 'oeu', 'Oeu049432.1' => 'oeu', 'Oeu049433.1' => 'oeu', 'Oeu049434.1' => 'oeu', 'Oeu049437.1' => 'oeu', 'Os09g0479300' => 'osa', 'Os09g0479400' => 'osa', 'Peaxi162Scf00232g00227' => 'pax', 'Peaxi162Scf00232g10022' => 'pax', 'Peaxi162Scf00232g10023' => 'pax', 'PGR083G0224' => 'pgr', 'PGR083G0862' => 'pgr', 'PGR083G1304' => 'pgr', 'PGR083G1497' => 'pgr', 'PGR083G1548' => 'pgr', 'PGR083G2358' => 'pgr', 'PGR083G2361' => 'pgr', 'PGR142G2019' => 'pgr', 'PGSC0003DMG400022262' => 'stu', 'PGSC0003DMG400022329' => 'stu', 'Phvul.004G042000' => 'pvu', 'Phvul.004G042200' => 'pvu', 'Phvul.006G059700' => 'pvu', 'Potri.001G438100' => 'ptr', 'Potri.001G438200' => 'ptr', 'Potri.003G101200' => 'ptr', 'Potri.006G002700' => 'ptr', 'Potri.011G141501' => 'ptr', 'Potri.011G141700' => 'ptr', 'Potri.011G141900' => 'ptr', 'Potri.011G165600' => 'ptr', 'Potri.016G003133' => 'ptr', 'PRCOL_00004444' => 'pco', 'Prupe.3G193000' => 'ppe', 'Prupe.3G193200' => 'ppe', 'Prupe.3G193300' => 'ppe', 'Prupe.4G002200' => 'ppe', 'Prupe.4G132900' => 'ppe', 'Prupe.4G133100' => 'ppe', 'Prupe.4G133200' => 'ppe', 'Prupe.4G133300' => 'ppe', 'Prupe.4G133400' => 'ppe', 'Prupe.4G133500' => 'ppe', 'Prupe.4G133600' => 'ppe', 'Prupe.6G197000' => 'ppe', 'Psat1g034800' => 'psa', 'Psat1g034880' => 'psa', 'Psat1g171840' => 'psa', 'Psat4g145920' => 'psa', 'Psat5g164240' => 'psa', 'Psat5g165800' => 'psa', 'Psat5g165880' => 'psa', 'Psat5g165960' => 'psa', 'PSO210G0634' => 'pso', 'PSO210G4086' => 'pso', 'PSO210G5127' => 'pso', 'PSO339G3872' => 'pso', 'PSO541G2099' => 'pso', 'PSO541G3924' => 'pso', 'PSO675G4046' => 'pso', 'PSO675G5317' => 'pso', 'QL04p066661' => 'qlo', 'QL04p066683' => 'qlo', 'QL04p074227' => 'qlo', 'QL04p074238' => 'qlo', 'QL05p066603' => 'qlo', 'RcHm_v2.0_Chr2g0155281' => 'rch', 'RcHm_v2.0_Chr2g0155291' => 'rch', 'RcHm_v2.0_Chr5g0000261' => 'rch', 'RcHm_v2.0_Chr5g0024361' => 'rch', 'RcHm_v2.0_Chr5g0024391' => 'rch', 'RcHm_v2.0_Chr5g0024411' => 'rch', 'RcHm_v2.0_Chr5g0024431' => 'rch', 'RcHm_v2.0_Chr5g0024451' => 'rch', 'RcHm_v2.0_Chr5g0024461' => 'rch', 'RcHm_v2.0_Chr5g0024471' => 'rch', 'RcHm_v2.0_Chr5g0024481' => 'rch', 'RcHm_v2.0_Chr5g0024491' => 'rch', 'RcHm_v2.0_Chr5g0024501' => 'rch', 'RcHm_v2.0_Chr5g0024511' => 'rch', 'Rhsim06G0233200' => 'rsi', 'Rhsim06G0233400' => 'rsi', 'Rhsim06G0233500' => 'rsi', 'Rhsim06G0233600' => 'rsi', 'Rhsim06G0233700' => 'rsi', 'Rhsim06G0233800' => 'rsi', 'Sabra06G0002600' => 'sbr', 'Sabra11G0127100' => 'sbr', 'Sabra11G0127200' => 'sbr', 'Sabra11G0127300' => 'sbr', 'Sabra11G0139900' => 'sbr', 'Sabra16G0008300' => 'sbr', 'Sabra16G0292000' => 'sbr', 'Sabra16G0292400' => 'sbr', 'Sabra16G0292800' => 'sbr', 'Sabra16G0295000' => 'sbr', 'Sabra16G0295100' => 'sbr', 'SalBow8G0336' => 'sbo', 'SalBow8G0935' => 'sbo', 'SalBow8G1228' => 'sbo', 'SalBow8G1865' => 'sbo', 'SalBow8G2672' => 'sbo', 'SalBow8G3149' => 'sbo', 'SalBow8G3489' => 'sbo', 'SalBow8G4141' => 'sbo', 'SalBow8G4275' => 'sbo', 'SalBow8G4802' => 'sbo', 'SalBow8G4974' => 'sbo', 'SalBow8G4986' => 'sbo', 'Sc01g0006560' => 'sci', 'Sc13g0008720' => 'sci', 'Sc17g0008080' => 'sci', 'Sed0002708' => 'sed', 'Sed0007550' => 'sed', 'Sed0014387' => 'sed', 'Sed0019745' => 'sed', 'SEGI_00462' => 'sgi', 'SEGI_01805' => 'sgi', 'SEGI_02535' => 'sgi', 'SEGI_05271' => 'sgi', 'SEGI_07922' => 'sgi', 'SEGI_12713' => 'sgi', 'SEGI_13357' => 'sgi', 'SEGI_13563' => 'sgi', 'SEGI_16152' => 'sgi', 'SEGI_17151' => 'sgi', 'SEGI_26136' => 'sgi', 'SEGI_26186' => 'sgi', 'SEGI_26842' => 'sgi', 'SEGI_27418' => 'sgi', 'SEGI_29703' => 'sgi', 'SEGI_29707' => 'sgi', 'SEGI_30056' => 'sgi', 'SEGI_31320' => 'sgi', 'SEGI_34250' => 'sgi', 'SEGI_35728' => 'sgi', 'SEGI_39370' => 'sgi', 'SEGI_40336' => 'sgi', 'SGA_v2.0_scaffold168G38587' => 'sas', 'SGA_v2.0_scaffold1831G54045' => 'sas', 'SGA_v2.0_scaffold7G03531' => 'sas', 'SGA_v2.0_scaffold7G03533' => 'sas', 'Solyc07g065920.4' => 'sly', 'Sopen07g034110' => 'spe', 'Sp1g40230' => 'spa', 'Sp1g41360' => 'spa', 'Sp6g17900' => 'spa', 'Sp7g24440' => 'spa', 'TAR365G0509' => 'tar', 'TAR624G1416' => 'tar', 'TAR625G0999' => 'tar', 'TAR627G0314' => 'tar', 'TAR627G0898' => 'tar', 'TAR627G1187' => 'tar', 'TAR629G1281' => 'tar', 'TAR629G2815' => 'tar', 'THA.LOC104813258' => 'tha', 'THA.LOC104813460' => 'tha', 'THA.LOC104814008' => 'tha', 'THA.LOC104814009' => 'tha', 'THA.LOC104822783' => 'tha', 'Thecc.01G096200' => 'tca', 'Thecc.07G006000' => 'tca', 'Thecc.07G006600' => 'tca', 'Thhalv10011398m.g' => 'esa', 'Thhalv10012292m.g' => 'esa', 'Thhalv10015456m.g' => 'esa', 'Thhalv10015573m.g' => 'esa', 'Thhalv10015928m.g' => 'esa', 'Thhalv10027179m.g' => 'esa', 'TPR.G10503' => 'tpr', 'TPR.G17927' => 'tpr', 'TPR.G17951' => 'tpr', 'TPR.G28414' => 'tpr', 'TPR.G31612' => 'tpr', 'TPR.G35196' => 'tpr', 'TPR.G35359' => 'tpr', 'TPR.G35361' => 'tpr', 'TWI32G1272' => 'twi', 'TWI38G0261' => 'twi', 'vmacro03591' => 'vma', 'vmacro11621' => 'vma', 'vmacro11622' => 'vma', 'vmacro11623' => 'vma', 'vmacro11624' => 'vma', 'vmacro12054' => 'vma', 'vmacro12055' => 'vma', 'VMungo0464G0005' => 'vmu', 'VMungo0464G0967' => 'vmu', 'VMungo0464G1373' => 'vmu', 'VMungo0540G1443' => 'vmu', 'VMungo0540G1520' => 'vmu', 'VMungo0647G1915' => 'vmu', 'Zm00001eb017470' => 'zma', 'Zm00001eb020210' => 'zma', 'Zm00001eb184360' => 'zma', 'Zm00001eb316150' => 'zma', 'Zm00001eb316170' => 'zma', 'Zm00001eb409670' => 'zma' ) $gf_id = 'HOM05D001067' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001067' ) $data_identifier = 'HOM05D001067' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 3, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 6, 'ath' => (int) 8, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 12, 'bca' => (int) 9, 'bol' => (int) 10, 'bra' => (int) 8, 'can' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 6, 'cru' => (int) 5, 'car' => (int) 2, 'ccan' => (int) 4, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 2, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 10, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 6, 'bvu' => (int) 9, 'egr' => (int) 8, 'fan' => (int) 12, 'fve' => (int) 11, 'gma' => (int) 4, 'ghi' => (int) 8, 'gra' => (int) 6, 'vvi' => (int) 13, 'han' => (int) 8, 'cav' => (int) 2, 'hma' => (int) 6, 'vpl' => (int) 1, 'sun' => (int) 6, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 6, 'lsa' => (int) 9, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 11, 'ama' => (int) 8, 'nta' => (int) 4, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 2, 'pax' => (int) 3, 'pgr' => (int) 8, 'stu' => (int) 2, 'pvu' => (int) 3, 'ptr' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 12, 'psa' => (int) 8, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 14, 'rsi' => (int) 6, 'sbr' => (int) 11, 'sbo' => (int) 12, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 22, 'sas' => (int) 4, 'sly' => (int) 1, 'spe' => (int) 1, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 2, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb409670' $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